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3.4k
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Comment: Comment: MAGERI: a software tool for calling rare variants and detecting circulating tumo
4 months ago by jeni ▴ 50
9
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5
replies
1.9k
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Remove supplementary alignments from a bam file
alignment
updated 7 months ago by • 0 • written 18 months ago by ▴ 50
0
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1
reply
298
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How to statistically determine if a mutation has an impact on expression individually for one patient
RNA-Seq variant calling
9 months ago by jeni ▴ 50
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1
reply
267
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Comment: C: Correct number of detected variants by coverage
11 months ago by jeni ▴ 50
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3
replies
267
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Correct number of detected variants by coverage
variant calling
11 months ago by jeni ▴ 50
0
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0
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365
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Comment: C: Differencial expression analysis between groups determined by two variables
12 months ago by jeni ▴ 50
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3
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365
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Differencial expression analysis between groups determined by two variables
expression microarray clustering
12 months ago by jeni ▴ 50
0
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1
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459
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Comment: C: Does it make sense to transform expression data to zscore after performing RMA?
13 months ago by jeni ▴ 50
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1
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459
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Comment: C: Does it make sense to transform expression data to zscore after performing RMA?
13 months ago by jeni ▴ 50
3
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5
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459
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Does it make sense to transform expression data to zscore after performing RMA?
microarray expression
updated 13 months ago by 78k • written 13 months ago by ▴ 50
0
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0
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340
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Is it right to use a low amount of bumphunter permutations?
methylation microarray DMR
13 months ago by jeni ▴ 50
0
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1
reply
909
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Comment: C: HOMER hg19 not found in config.txt
13 months ago by jeni ▴ 50
0
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0
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264
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How to deal with SNPs and INDELs called in hypermutated regions?
variant calling
14 months ago by jeni ▴ 50
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0
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294
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Where to find a list of hypermutated regions for hg19 assembly?
variant calling
15 months ago by jeni ▴ 50
2
votes
1
reply
403
views
How to know which genes are favouring or inactivating a pathway in a gene set enrichment analysis
enrichment analysis
updated 15 months ago by ★ 1.5k • written 15 months ago by ▴ 50
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0
replies
414
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Reduce GRanges by different lengths of overlapping, deppending on each compared intervals
GRanges
16 months ago by jeni ▴ 50
0
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3
replies
909
views
HOMER hg19 not found in config.txt
HOMER motif finding
updated 10 weeks ago by • 0 • written 16 months ago by ▴ 50
0
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0
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417
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Comment: C: Best practice to find regulatory motifs in a set of sequences
16 months ago by jeni ▴ 50
0
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1
reply
417
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Comment: C: Best practice to find regulatory motifs in a set of sequences
16 months ago by jeni ▴ 50
0
votes
1
reply
417
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Comment: C: Best practice to find regulatory motifs in a set of sequences
16 months ago by jeni ▴ 50
3
votes
9
replies
417
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Best practice to find regulatory motifs in a set of sequences
regulatory motif finding
updated 16 months ago by ★ 14k • written 16 months ago by ▴ 50
0
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1
reply
417
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Comment: C: Best practice to find regulatory motifs in a set of sequences
16 months ago by jeni ▴ 50
0
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1
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474
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Comment: C: Best way to call differencially methylated positions taking into account results
16 months ago by jeni ▴ 50
3
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3
replies
474
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Best way to call differencially methylated positions taking into account results from both Beta and M values
methylation
updated 16 months ago by ★ 1.5k • written 16 months ago by ▴ 50
0
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1
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8.5k
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Comment: C: Beta-values, M-values and thresholds on effect size
16 months ago by jeni ▴ 50
2
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5
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545
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VEP is returning MOTIF_NAME values not recognised by Ensembl
snp Ensembl VEP
updated 16 months ago by ▴ 230 • written 17 months ago by ▴ 50
0
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0
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233
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Download all positions where a motif exist from the genome browser
genome
16 months ago by jeni ▴ 50
0
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1
reply
545
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Comment: C: VEP is returning MOTIF_NAME values not recognised by Ensembl
17 months ago by jeni ▴ 50
0
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0
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284
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Comment: C: Pathways analysis taking into account the number of times a gene is present amon
17 months ago by jeni ▴ 50
0
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1
reply
284
views
Comment: C: Pathways analysis taking into account the number of times a gene is present amon
17 months ago by jeni ▴ 50
0
votes
1
reply
284
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Comment: C: Pathways analysis taking into account the number of times a gene is present amon
17 months ago by jeni ▴ 50
0
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6
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284
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Pathways analysis taking into account the number of times a gene is present among several patients
snp
17 months ago by jeni ▴ 50
0
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0
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375
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Comment: C: filter_vep not properly filtering
17 months ago by jeni ▴ 50
2
votes
2
replies
537
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Read genotype information with VariantAnnotation
SNP R vcf Bioconductor VariantAnnotation
updated 17 months ago by ★ 2.6k • written 17 months ago by ▴ 50
0
votes
2
replies
375
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filter_vep not properly filtering
snp
updated 17 months ago by 34k • written 18 months ago by ▴ 50
0
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0
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1.1k
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Comment: C: Parse VEP VCF with variantAnnotation
18 months ago by jeni ▴ 50
3
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6
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1.1k
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Parse VEP VCF with variantAnnotation
snp R
18 months ago by jeni ▴ 50
0
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0
replies
1.1k
views
Comment: C: Parse VEP VCF with variantAnnotation
18 months ago by jeni ▴ 50
0
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1
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752
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Comment: C: Is it right to combine multiple runs downloaded from SRA?
18 months ago by jeni ▴ 50
1
vote
4
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752
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Is it right to combine multiple runs downloaded from SRA?
next-gen
18 months ago by jeni ▴ 50
0
votes
4
replies
280
views
How to remove reads supporting the same fragment that other reads support
Assembly genome
18 months ago by jeni ▴ 50
0
votes
0
replies
280
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Comment: C: How to remove reads supporting the same fragment that other reads support
18 months ago by jeni ▴ 50
2
votes
6
replies
759
views
Extract reads with insert size 0 from a bam file
alignment
updated 18 months ago by 7.6k • written 18 months ago by ▴ 50
0
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0
replies
759
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Comment: C: Extract reads with insert size 0 from a bam file
18 months ago by jeni ▴ 50
0
votes
1
reply
759
views
Comment: C: Extract reads with insert size 0 from a bam file
18 months ago by jeni ▴ 50
0
votes
0
replies
352
views
Comment: C: Transform genomic intervals to genomic positions in an R dataframe
updated 19 months ago by 78k • written 19 months ago by ▴ 50
0
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1
reply
352
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Comment: C: Transform genomic intervals to genomic positions in an R dataframe
19 months ago by jeni ▴ 50
0
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5
replies
352
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Transform genomic intervals to genomic positions in an R dataframe
R
19 months ago by jeni ▴ 50
0
votes
1
reply
338
views
Plot per base coverage from regions coverage with R
R
updated 19 months ago by 5.5k • written 19 months ago by ▴ 50
0
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0
replies
573
views
Comment: C: Minfi preprocessNoob vs preprocessQuantile normalization for Illumina EPIC array
22 months ago by jeni ▴ 50
53 results • Page 1 of 2
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